Multiple sequence alignment - TraesCS1B01G321500

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS1B01G321500 chr1B 100.000 3572 0 0 1 3572 545460289 545463860 0.000000e+00 6597.0
1 TraesCS1B01G321500 chr1D 93.058 2852 96 44 217 3016 405401126 405403927 0.000000e+00 4076.0
2 TraesCS1B01G321500 chr1D 92.566 565 37 3 3009 3572 405404613 405405173 0.000000e+00 806.0
3 TraesCS1B01G321500 chr1D 91.061 179 6 4 4 172 405399603 405399781 2.140000e-57 233.0
4 TraesCS1B01G321500 chr1D 90.909 55 2 3 3151 3202 405404795 405404849 1.780000e-08 71.3
5 TraesCS1B01G321500 chr1A 91.237 3081 141 52 501 3516 500959931 500962947 0.000000e+00 4074.0
6 TraesCS1B01G321500 chr1A 90.514 253 15 5 217 467 500924437 500924682 3.440000e-85 326.0
7 TraesCS1B01G321500 chr1A 91.200 125 4 1 4 128 500924160 500924277 2.850000e-36 163.0
8 TraesCS1B01G321500 chr1A 94.737 76 3 1 130 204 500924376 500924451 2.250000e-22 117.0
9 TraesCS1B01G321500 chr1A 97.500 40 1 0 3151 3190 500962615 500962654 6.400000e-08 69.4
10 TraesCS1B01G321500 chr3D 78.825 987 152 43 1463 2417 438265613 438264652 2.360000e-171 612.0
11 TraesCS1B01G321500 chr3D 88.701 177 16 4 1025 1199 438266206 438266032 2.790000e-51 213.0
12 TraesCS1B01G321500 chr3B 81.074 745 103 23 1697 2417 573620156 573619426 8.660000e-156 560.0
13 TraesCS1B01G321500 chr3B 87.500 176 20 2 1025 1199 573621178 573621004 6.050000e-48 202.0
14 TraesCS1B01G321500 chr3A 83.099 426 58 6 1697 2121 576604905 576604493 3.370000e-100 375.0
15 TraesCS1B01G321500 chr3A 89.080 174 19 0 1025 1198 576605759 576605586 2.160000e-52 217.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1B01G321500 chr1B 545460289 545463860 3571 False 6597.000 6597 100.000000 1 3572 1 chr1B.!!$F1 3571
1 TraesCS1B01G321500 chr1D 405399603 405405173 5570 False 1296.575 4076 91.898500 4 3572 4 chr1D.!!$F1 3568
2 TraesCS1B01G321500 chr1A 500959931 500962947 3016 False 2071.700 4074 94.368500 501 3516 2 chr1A.!!$F2 3015
3 TraesCS1B01G321500 chr1A 500924160 500924682 522 False 202.000 326 92.150333 4 467 3 chr1A.!!$F1 463
4 TraesCS1B01G321500 chr3D 438264652 438266206 1554 True 412.500 612 83.763000 1025 2417 2 chr3D.!!$R1 1392
5 TraesCS1B01G321500 chr3B 573619426 573621178 1752 True 381.000 560 84.287000 1025 2417 2 chr3B.!!$R1 1392
6 TraesCS1B01G321500 chr3A 576604493 576605759 1266 True 296.000 375 86.089500 1025 2121 2 chr3A.!!$R1 1096

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
690 2141 0.250467 AACGGATCAGCTGTGCTTGT 60.250 50.000 14.67 4.65 36.40 3.16 F
694 2145 0.801251 GATCAGCTGTGCTTGTGGTC 59.199 55.000 14.67 0.00 36.40 4.02 F
2097 4022 1.134401 ACCATCGGCTTCGACATGAAT 60.134 47.619 0.00 0.00 46.32 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1899 3824 0.043183 TGATGAAGAGGGAGCCCAGA 59.957 55.0 8.53 0.0 38.92 3.86 R
2549 4498 0.108138 AACTGCACTAGCCGATCCAC 60.108 55.0 0.00 0.0 41.13 4.02 R
3305 6002 0.166814 CAGCGCTTGTTGGTTCTAGC 59.833 55.0 7.50 0.0 34.06 3.42 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
95 100 3.314913 CACACAGGTGCACAAGTTCATAA 59.685 43.478 20.43 0.00 38.37 1.90
128 139 9.030452 ACCAAATTTTATAGATTTACAGTGGCA 57.970 29.630 0.00 0.00 0.00 4.92
190 1624 7.073725 AGCCTTAGGAAAATGTATGAAGGGATA 59.926 37.037 0.69 0.00 33.94 2.59
191 1625 7.175119 GCCTTAGGAAAATGTATGAAGGGATAC 59.825 40.741 0.69 0.00 33.94 2.24
192 1626 8.440771 CCTTAGGAAAATGTATGAAGGGATACT 58.559 37.037 0.00 0.00 31.15 2.12
193 1627 9.853177 CTTAGGAAAATGTATGAAGGGATACTT 57.147 33.333 0.00 0.00 43.65 2.24
200 1634 9.853177 AAATGTATGAAGGGATACTTTTAGAGG 57.147 33.333 0.00 0.00 40.21 3.69
201 1635 7.374975 TGTATGAAGGGATACTTTTAGAGGG 57.625 40.000 0.00 0.00 40.21 4.30
202 1636 4.772886 TGAAGGGATACTTTTAGAGGGC 57.227 45.455 0.00 0.00 40.21 5.19
203 1637 4.371681 TGAAGGGATACTTTTAGAGGGCT 58.628 43.478 0.00 0.00 40.21 5.19
204 1638 4.409247 TGAAGGGATACTTTTAGAGGGCTC 59.591 45.833 0.00 0.00 40.21 4.70
205 1639 4.288324 AGGGATACTTTTAGAGGGCTCT 57.712 45.455 0.00 0.00 43.40 4.09
206 1640 4.636536 AGGGATACTTTTAGAGGGCTCTT 58.363 43.478 0.00 0.00 40.93 2.85
207 1641 5.040330 AGGGATACTTTTAGAGGGCTCTTT 58.960 41.667 0.00 0.00 40.93 2.52
208 1642 5.492887 AGGGATACTTTTAGAGGGCTCTTTT 59.507 40.000 0.00 0.00 40.93 2.27
209 1643 6.011540 AGGGATACTTTTAGAGGGCTCTTTTT 60.012 38.462 0.00 0.00 40.93 1.94
238 1672 9.335211 GGGGTATTTTTAGAGGGATTAGAGATA 57.665 37.037 0.00 0.00 0.00 1.98
344 1781 1.134068 GGAAGTATTGGAGGTCTGCCC 60.134 57.143 0.00 0.00 34.57 5.36
521 1967 4.336889 TGCACTGTTAGTTCAGCTAAGT 57.663 40.909 0.00 0.00 40.07 2.24
690 2141 0.250467 AACGGATCAGCTGTGCTTGT 60.250 50.000 14.67 4.65 36.40 3.16
692 2143 1.642037 CGGATCAGCTGTGCTTGTGG 61.642 60.000 14.67 0.00 36.40 4.17
694 2145 0.801251 GATCAGCTGTGCTTGTGGTC 59.199 55.000 14.67 0.00 36.40 4.02
721 2172 2.650813 AATCGGATCCGCTGTGCTCC 62.651 60.000 29.62 0.00 39.59 4.70
784 2235 1.933021 TGGACCCACGTTACTCAGAT 58.067 50.000 0.00 0.00 0.00 2.90
788 2239 3.181489 GGACCCACGTTACTCAGATGTAG 60.181 52.174 0.00 0.00 0.00 2.74
868 2322 2.498077 GGCCAAGCCTCTTCCATTC 58.502 57.895 0.00 0.00 46.69 2.67
915 2374 6.876257 ACTCCATCTTTGAGTTCTCAATACAC 59.124 38.462 14.67 0.00 40.06 2.90
916 2375 5.869344 TCCATCTTTGAGTTCTCAATACACG 59.131 40.000 14.67 5.11 0.00 4.49
917 2376 5.446473 CCATCTTTGAGTTCTCAATACACGC 60.446 44.000 14.67 0.00 0.00 5.34
918 2377 3.673338 TCTTTGAGTTCTCAATACACGCG 59.327 43.478 14.67 3.53 0.00 6.01
919 2378 1.990799 TGAGTTCTCAATACACGCGG 58.009 50.000 12.47 1.27 0.00 6.46
967 2437 3.202097 CAAGAAGCTAGCTAGGGAAAGC 58.798 50.000 19.70 9.37 43.11 3.51
991 2461 2.413310 ACAAGGAACAGTTTGGTCGT 57.587 45.000 0.00 0.00 34.15 4.34
992 2462 2.285977 ACAAGGAACAGTTTGGTCGTC 58.714 47.619 0.00 0.00 34.15 4.20
993 2463 1.602377 CAAGGAACAGTTTGGTCGTCC 59.398 52.381 0.00 0.00 34.15 4.79
1257 2925 8.646004 TGATCATATATAGATCTTTGCTAGCCC 58.354 37.037 13.29 0.00 41.85 5.19
1258 2926 7.978099 TCATATATAGATCTTTGCTAGCCCA 57.022 36.000 13.29 0.00 0.00 5.36
1259 2927 7.786030 TCATATATAGATCTTTGCTAGCCCAC 58.214 38.462 13.29 0.00 0.00 4.61
1260 2928 7.400052 TCATATATAGATCTTTGCTAGCCCACA 59.600 37.037 13.29 0.00 0.00 4.17
1261 2929 4.989875 ATAGATCTTTGCTAGCCCACAT 57.010 40.909 13.29 0.00 0.00 3.21
1306 2980 8.181573 TCTAACTTGTGAAACTTGACATGAAAC 58.818 33.333 0.00 0.00 38.04 2.78
1612 3473 4.455533 TGCAATTTCACTACCAGCTTACTG 59.544 41.667 0.00 0.00 44.05 2.74
1613 3474 7.729894 GTGCAATTTCACTACCAGCTTACTGA 61.730 42.308 0.58 0.00 38.79 3.41
1614 3475 9.621977 GTGCAATTTCACTACCAGCTTACTGAC 62.622 44.444 0.58 0.00 38.79 3.51
1676 3549 3.424433 GGAACGAGAAACCATTGCTAACG 60.424 47.826 0.00 0.00 0.00 3.18
1679 3599 3.059188 ACGAGAAACCATTGCTAACGTTG 60.059 43.478 11.99 2.07 0.00 4.10
1687 3607 2.679355 TTGCTAACGTTGTGCATGAC 57.321 45.000 24.17 0.00 36.55 3.06
2031 3956 1.299648 CTTCATCGGCACCCTCCAA 59.700 57.895 0.00 0.00 0.00 3.53
2034 3959 4.473520 ATCGGCACCCTCCAAGCG 62.474 66.667 0.00 0.00 0.00 4.68
2097 4022 1.134401 ACCATCGGCTTCGACATGAAT 60.134 47.619 0.00 0.00 46.32 2.57
2141 4066 4.736793 GGTACGATCACTTACCATTGTACG 59.263 45.833 9.36 0.00 39.43 3.67
2169 4102 9.565090 CATGATCTCTTCCATTACCATTTCTTA 57.435 33.333 0.00 0.00 0.00 2.10
2424 4373 2.650116 GGAGACGCAGGAGCAGGAA 61.650 63.158 0.00 0.00 42.27 3.36
2549 4498 2.261671 CTCCAACGGACGTGGAGG 59.738 66.667 23.46 15.67 43.98 4.30
2556 4505 2.494918 GGACGTGGAGGTGGATCG 59.505 66.667 0.00 0.00 0.00 3.69
2585 4534 2.816087 CAGTTTGATGGACTGGGAACTG 59.184 50.000 0.00 0.00 40.58 3.16
2622 4580 3.418047 TGACATGAGAAGACGTAGGTCA 58.582 45.455 17.27 0.00 45.92 4.02
2632 4590 0.392193 ACGTAGGTCATCGTCGTCCT 60.392 55.000 0.00 0.00 35.30 3.85
2778 4736 3.731717 GGCTCGCATTTTTGTTTTACGAA 59.268 39.130 0.00 0.00 0.00 3.85
2814 4772 7.489160 TCGATATGCTACACTTATTTGTCACT 58.511 34.615 0.00 0.00 0.00 3.41
2815 4773 8.626526 TCGATATGCTACACTTATTTGTCACTA 58.373 33.333 0.00 0.00 0.00 2.74
2816 4774 8.691727 CGATATGCTACACTTATTTGTCACTAC 58.308 37.037 0.00 0.00 0.00 2.73
2817 4775 9.751542 GATATGCTACACTTATTTGTCACTACT 57.248 33.333 0.00 0.00 0.00 2.57
2818 4776 9.751542 ATATGCTACACTTATTTGTCACTACTC 57.248 33.333 0.00 0.00 0.00 2.59
2819 4777 6.988522 TGCTACACTTATTTGTCACTACTCA 58.011 36.000 0.00 0.00 0.00 3.41
2820 4778 6.866770 TGCTACACTTATTTGTCACTACTCAC 59.133 38.462 0.00 0.00 0.00 3.51
2835 4793 6.539103 TCACTACTCACTAGTACTGCTACATG 59.461 42.308 5.39 0.00 37.15 3.21
2886 4844 3.882888 TGCCTTTCCACTTTACTTGTCTG 59.117 43.478 0.00 0.00 0.00 3.51
2891 4849 7.255486 GCCTTTCCACTTTACTTGTCTGTAATT 60.255 37.037 0.00 0.00 33.16 1.40
2940 4900 3.715628 AGCGGCCTTGCTATTTTATTG 57.284 42.857 2.94 0.00 45.14 1.90
3113 5791 3.450457 CCACTCTAGCAGAATCTGAACCT 59.550 47.826 15.38 4.30 32.44 3.50
3114 5792 4.081198 CCACTCTAGCAGAATCTGAACCTT 60.081 45.833 15.38 0.00 32.44 3.50
3115 5793 4.869297 CACTCTAGCAGAATCTGAACCTTG 59.131 45.833 15.38 3.22 32.44 3.61
3194 5872 1.331214 AGATGCCACACTTGGTTTGG 58.669 50.000 0.00 0.00 45.98 3.28
3211 5889 5.365314 TGGTTTGGTCTTGCTTTAAAAGGAT 59.635 36.000 0.00 0.00 0.00 3.24
3270 5967 9.587772 TGCTATTTTCACTGAAGAGTTATAGTC 57.412 33.333 0.00 0.00 0.00 2.59
3292 5989 7.941919 AGTCTGCTAATACAAGATCGTGAATA 58.058 34.615 15.90 0.00 0.00 1.75
3305 6002 1.389555 GTGAATAAAAGGGGGCCTCG 58.610 55.000 0.84 0.00 30.89 4.63
3308 6007 1.142262 GAATAAAAGGGGGCCTCGCTA 59.858 52.381 0.84 0.00 37.71 4.26
3354 6053 6.398918 AGCCGTATGAGCATATTTAGTTAGG 58.601 40.000 0.00 0.00 0.00 2.69
3390 6089 4.477536 TCTGGGATCTAGCAATCTAGGT 57.522 45.455 0.00 0.00 42.01 3.08
3398 6097 2.409948 AGCAATCTAGGTGGAGCAAC 57.590 50.000 0.00 0.00 0.00 4.17
3450 6150 2.820059 TGATCAGATGACCATACGGC 57.180 50.000 0.00 0.00 34.57 5.68
3480 6180 3.003275 CGAGAGAGTTGTCAGATAGAGCC 59.997 52.174 0.00 0.00 0.00 4.70
3488 6188 3.833732 TGTCAGATAGAGCCGGTAAGAT 58.166 45.455 1.90 0.00 0.00 2.40
3540 6240 2.225727 GCTATTTAGCCGGCATGTAACC 59.774 50.000 31.54 8.07 43.39 2.85
3542 6242 0.621609 TTTAGCCGGCATGTAACCCT 59.378 50.000 31.54 6.76 0.00 4.34
3549 6249 1.688811 GCATGTAACCCTGGGACCA 59.311 57.895 22.23 12.70 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.374758 GTCCTCTTCCTGGCACACG 60.375 63.158 0.00 0.00 0.00 4.49
1 2 0.603975 GTGTCCTCTTCCTGGCACAC 60.604 60.000 0.00 0.00 34.30 3.82
2 3 1.754745 GTGTCCTCTTCCTGGCACA 59.245 57.895 0.00 0.00 34.30 4.57
15 16 5.598830 TCAGATCCTAGATAACAAGGTGTCC 59.401 44.000 0.00 0.00 34.30 4.02
119 130 2.094026 CACACATAGCTCTGCCACTGTA 60.094 50.000 0.00 0.00 0.00 2.74
128 139 2.105477 CCCCATAAGCACACATAGCTCT 59.895 50.000 0.00 0.00 42.53 4.09
208 1642 9.523547 TCTAATCCCTCTAAAAATACCCCTAAA 57.476 33.333 0.00 0.00 0.00 1.85
209 1643 9.167387 CTCTAATCCCTCTAAAAATACCCCTAA 57.833 37.037 0.00 0.00 0.00 2.69
210 1644 8.525577 TCTCTAATCCCTCTAAAAATACCCCTA 58.474 37.037 0.00 0.00 0.00 3.53
211 1645 7.379139 TCTCTAATCCCTCTAAAAATACCCCT 58.621 38.462 0.00 0.00 0.00 4.79
212 1646 7.628501 TCTCTAATCCCTCTAAAAATACCCC 57.371 40.000 0.00 0.00 0.00 4.95
250 1684 2.508300 GACTTGAGGGGGCCAAATACTA 59.492 50.000 4.39 0.00 0.00 1.82
251 1685 1.285078 GACTTGAGGGGGCCAAATACT 59.715 52.381 4.39 0.00 0.00 2.12
344 1781 1.014352 GCTTATGGTTAGTGGGCGTG 58.986 55.000 0.00 0.00 0.00 5.34
379 1816 0.541392 TGGTGCTGCGTGGAGAATAT 59.459 50.000 0.00 0.00 0.00 1.28
489 1935 0.534412 AACAGTGCATCCTCTCTCGG 59.466 55.000 0.00 0.00 0.00 4.63
635 2086 1.227383 GTGGAATTCCTCCCGCCAT 59.773 57.895 24.73 0.00 44.69 4.40
640 2091 1.153147 GCCGAGTGGAATTCCTCCC 60.153 63.158 24.73 11.75 44.69 4.30
690 2141 3.305131 CGGATCCGATTCGAAATAGACCA 60.305 47.826 30.62 0.00 42.83 4.02
692 2143 2.662156 GCGGATCCGATTCGAAATAGAC 59.338 50.000 37.64 11.02 42.83 2.59
694 2145 2.663602 CAGCGGATCCGATTCGAAATAG 59.336 50.000 37.64 13.09 42.83 1.73
721 2172 2.391616 TCCAGAAGTGTAGCATGCAG 57.608 50.000 21.98 0.00 0.00 4.41
868 2322 2.675056 GCAAGCGAGTGTGAGCTGG 61.675 63.158 0.00 0.00 43.78 4.85
967 2437 4.672409 GACCAAACTGTTCCTTGTTTCAG 58.328 43.478 0.00 0.00 34.60 3.02
1234 2704 7.400052 TGTGGGCTAGCAAAGATCTATATATGA 59.600 37.037 18.24 0.00 0.00 2.15
1235 2705 7.559486 TGTGGGCTAGCAAAGATCTATATATG 58.441 38.462 18.24 0.00 0.00 1.78
1236 2706 7.739995 TGTGGGCTAGCAAAGATCTATATAT 57.260 36.000 18.24 0.00 0.00 0.86
1237 2707 7.180946 ACATGTGGGCTAGCAAAGATCTATATA 59.819 37.037 18.24 0.00 0.00 0.86
1240 2710 4.103785 ACATGTGGGCTAGCAAAGATCTAT 59.896 41.667 18.24 0.00 0.00 1.98
1241 2711 3.455910 ACATGTGGGCTAGCAAAGATCTA 59.544 43.478 18.24 0.00 0.00 1.98
1242 2712 2.240667 ACATGTGGGCTAGCAAAGATCT 59.759 45.455 18.24 0.00 0.00 2.75
1243 2713 2.648059 ACATGTGGGCTAGCAAAGATC 58.352 47.619 18.24 0.00 0.00 2.75
1244 2714 2.814805 ACATGTGGGCTAGCAAAGAT 57.185 45.000 18.24 4.86 0.00 2.40
1306 2980 4.785453 GGCCTCACCTTCCTGCCG 62.785 72.222 0.00 0.00 34.51 5.69
1425 3286 0.663153 GTAAGATGGGCGTGGCATTC 59.337 55.000 0.00 0.00 0.00 2.67
1430 3291 2.192175 GGGGTAAGATGGGCGTGG 59.808 66.667 0.00 0.00 0.00 4.94
1612 3473 2.200170 GATGCACGGCACCCAAAGTC 62.200 60.000 0.50 0.00 43.04 3.01
1613 3474 2.203480 ATGCACGGCACCCAAAGT 60.203 55.556 0.50 0.00 43.04 2.66
1614 3475 1.597797 ATGATGCACGGCACCCAAAG 61.598 55.000 0.50 0.00 43.04 2.77
1615 3476 0.322906 TATGATGCACGGCACCCAAA 60.323 50.000 0.50 0.00 43.04 3.28
1642 3515 4.444024 CGTTCCACGTGCGCATGG 62.444 66.667 31.55 26.55 36.74 3.66
1676 3549 2.032302 TGTACCAAACGTCATGCACAAC 59.968 45.455 0.00 0.00 0.00 3.32
1679 3599 3.063452 CCTATGTACCAAACGTCATGCAC 59.937 47.826 0.00 0.00 0.00 4.57
1687 3607 4.665833 TCTCCATCCTATGTACCAAACG 57.334 45.455 0.00 0.00 0.00 3.60
1691 3611 7.103745 TCTATCTTCTCCATCCTATGTACCA 57.896 40.000 0.00 0.00 0.00 3.25
1743 3668 1.189524 TCACCACCGTCCCGAAGATT 61.190 55.000 0.00 0.00 0.00 2.40
1899 3824 0.043183 TGATGAAGAGGGAGCCCAGA 59.957 55.000 8.53 0.00 38.92 3.86
2031 3956 3.701604 GAAGGTGACGGCGATCGCT 62.702 63.158 36.25 20.67 43.89 4.93
2034 3959 1.872679 GACGAAGGTGACGGCGATC 60.873 63.158 16.62 8.31 36.02 3.69
2141 4066 7.718753 AGAAATGGTAATGGAAGAGATCATGTC 59.281 37.037 0.00 0.00 0.00 3.06
2169 4102 3.741700 GCAAAATACCACCAAAACCGGTT 60.742 43.478 15.86 15.86 37.07 4.44
2482 4431 3.745803 GGCAGCAGCTCCTTGCAC 61.746 66.667 13.70 0.00 46.47 4.57
2549 4498 0.108138 AACTGCACTAGCCGATCCAC 60.108 55.000 0.00 0.00 41.13 4.02
2556 4505 1.740025 GTCCATCAAACTGCACTAGCC 59.260 52.381 0.00 0.00 41.13 3.93
2585 4534 2.368439 TGTCAGGGCACAGATTATTGC 58.632 47.619 0.00 0.00 38.06 3.56
2632 4590 4.746951 CCGTAGTGCGTGCGTCGA 62.747 66.667 0.00 0.00 42.86 4.20
2658 4616 4.657814 TCCTAGCAGAAAACCTCCATTT 57.342 40.909 0.00 0.00 0.00 2.32
2778 4736 5.923114 GTGTAGCATATCGATCAATCACACT 59.077 40.000 18.07 4.83 32.03 3.55
2814 4772 6.539103 CAGACATGTAGCAGTACTAGTGAGTA 59.461 42.308 5.39 0.00 37.10 2.59
2815 4773 5.355630 CAGACATGTAGCAGTACTAGTGAGT 59.644 44.000 5.39 0.00 39.92 3.41
2816 4774 5.355630 ACAGACATGTAGCAGTACTAGTGAG 59.644 44.000 5.39 0.00 38.09 3.51
2817 4775 5.254115 ACAGACATGTAGCAGTACTAGTGA 58.746 41.667 5.39 0.00 38.09 3.41
2818 4776 5.449314 GGACAGACATGTAGCAGTACTAGTG 60.449 48.000 5.39 0.00 40.68 2.74
2819 4777 4.641094 GGACAGACATGTAGCAGTACTAGT 59.359 45.833 0.00 0.00 40.68 2.57
2820 4778 4.640647 TGGACAGACATGTAGCAGTACTAG 59.359 45.833 0.00 0.00 40.68 2.57
2835 4793 1.403679 CACTCTCCGAGATGGACAGAC 59.596 57.143 0.00 0.00 43.74 3.51
2940 4900 5.971895 TGTTCTACGGTCAGTGTTTAAAC 57.028 39.130 11.54 11.54 0.00 2.01
3005 4988 7.572759 TCTAGCTTTGTTCTCGTTTTGTAATG 58.427 34.615 0.00 0.00 0.00 1.90
3010 5686 6.194692 GTGTTTCTAGCTTTGTTCTCGTTTTG 59.805 38.462 0.00 0.00 0.00 2.44
3014 5690 4.694339 AGTGTTTCTAGCTTTGTTCTCGT 58.306 39.130 0.00 0.00 0.00 4.18
3098 5776 3.152341 CCAACAAGGTTCAGATTCTGCT 58.848 45.455 8.89 0.00 0.00 4.24
3113 5791 5.106078 GCAACCGAATAAAGGATACCAACAA 60.106 40.000 0.00 0.00 37.17 2.83
3114 5792 4.396790 GCAACCGAATAAAGGATACCAACA 59.603 41.667 0.00 0.00 37.17 3.33
3115 5793 4.396790 TGCAACCGAATAAAGGATACCAAC 59.603 41.667 0.00 0.00 37.17 3.77
3190 5868 5.838521 AGGATCCTTTTAAAGCAAGACCAAA 59.161 36.000 9.02 0.00 0.00 3.28
3211 5889 1.067295 AAGTGTGGCATCTTGGAGGA 58.933 50.000 7.01 0.00 0.00 3.71
3270 5967 9.855361 CTTTTATTCACGATCTTGTATTAGCAG 57.145 33.333 0.00 0.00 0.00 4.24
3292 5989 1.205460 TTCTAGCGAGGCCCCCTTTT 61.205 55.000 0.00 0.00 31.76 2.27
3305 6002 0.166814 CAGCGCTTGTTGGTTCTAGC 59.833 55.000 7.50 0.00 34.06 3.42
3308 6007 1.526917 AGCAGCGCTTGTTGGTTCT 60.527 52.632 7.50 0.00 33.89 3.01
3322 6021 2.012237 CTCATACGGCTTGCAGCAG 58.988 57.895 9.78 8.22 44.75 4.24
3354 6053 2.369394 CCCAGAATAGGGTTTCACTGC 58.631 52.381 0.00 0.00 44.24 4.40
3378 6077 2.170607 GGTTGCTCCACCTAGATTGCTA 59.829 50.000 0.00 0.00 33.50 3.49
3398 6097 0.467804 GCTTAAGGCTGAGGAGGAGG 59.532 60.000 4.29 0.00 38.06 4.30
3450 6150 2.031944 TGACAACTCTCTCGTCAAGTCG 60.032 50.000 0.00 0.00 36.75 4.18
3480 6180 7.786178 TCTCATAACATTTGGAATCTTACCG 57.214 36.000 0.00 0.00 0.00 4.02
3488 6188 6.404623 CGCCTGAAATCTCATAACATTTGGAA 60.405 38.462 0.00 0.00 0.00 3.53
3540 6240 0.184451 CATCCCATCTTGGTCCCAGG 59.816 60.000 0.00 0.00 35.17 4.45
3542 6242 0.918983 GTCATCCCATCTTGGTCCCA 59.081 55.000 0.00 0.00 35.17 4.37
3549 6249 3.054434 TCAATCCAACGTCATCCCATCTT 60.054 43.478 0.00 0.00 0.00 2.40


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.